KNIME Workflow for RetroRules and Retropath2.0
Download WorkflowKNIME Workflow for RetroRules and RetroPath2.0
This worflow provides an examples of retrieving the RetroRules reaction rules for some given reaction identifiers.
1. Input to the workflow: Chemical reactions expressed using public database identifiers.
2. Each reaction queries RetroRules and outputs the corresponding reaction rules.
3. Resulting list of rulesenzymes is stored in a csv file in RetroPath2.0 format.
Installation notes
The workflow runs a Python scrpt that requires pandas: Python Data Analysis Library. In order to setup the Python Extension, please check the KNIME documentation:
https://www.knime.com/blog/how-to-setup-the-python-extension
Release: r20180811
How to cite
Duigou T, Du Lac, M., Carbonell P, Faulon JL. RetroRules: a database of reaction rules for engineering biology.
Please report bugs to pablo.carbonell@manchester.ac.uk
Worfklow Licence: CC BY-SA
P. Carbonell, 2018.
This work is licensed under the Creative Commons Attribution-ShareAlike 4.0 International License. To view a copy of this license, visit http://creativecommons.org/licenses/by-sa/4.0/.
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licensed under:
Creative Commons Attribution-ShareAlike 4.0 International License
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